wikipathways-collection

WikiPathways WP5222

• WikiPathways: WP5222 (classic)
• Species: Homo sapiens
• Scholia: WP5222

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 5
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 17
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 2
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 2
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 20
• Number of tests: 117
• Number of assertions: 235
• Number of fails: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 5

• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/f823a ()
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/cd052 (Anti-inflammatory cytokines)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/d72b1 (Epithelial inflammatory response)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/de57a (RNA pol I holoenzyme)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/d0197 (Teeth development)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier

Datanodes of unknown type

The following DataNodes have Unknown @Type: 17

• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/f823a ()
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/cd052 (Anti-inflammatory cytokines)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/daaae (B cell proliferation)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/d72b1 (Epithelial inflammatory response)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/fa772 (FILIPPI SYNDROME; FLPIS)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/d0197 (Teeth development)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/fae50 (actin cytoskeleton reorganization )
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/baa65 (dendritic cell)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/ee0fb (extracellular matrix)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/f1694 (immature T cell proliferation in thymus)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/d98fc (immunomodulation)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/ac8f2 (innate immune response)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/ddae8 (macrophage)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/d6e01 (microtubule)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/c706b (mitotic spindle assembly)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/eb306 (odontoblast)
• http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/DataNode/e3201 (snRNA transcription by RNA polymerase II)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/unknownTypes

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 2

http://classic.wikipathways.org/instance/WP5222_r134652 "Exact function unknown" with graphId d9c7c
http://classic.wikipathways.org/instance/WP5222_r134652 "Exact function unknown" with graphId cbda6

Possible MIM translocation

Interactions between identical nodes: 2

http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/WP/Interaction/id212e0ce6 "Na+" (https://identifiers.org/chebi/CHEBI:29101) and 
Na+" (https://identifiers.org/chebi/CHEBI:29101)
http://classic.wikipathways.org/instance/WP5222_r134652 http://rdf.wikipathways.org/Pathway/WP5222_r134652/WP/Interaction/id44743419 "Pi" (https://identifiers.org/chebi/CHEBI:43474) and 
Pi" (https://identifiers.org/chebi/CHEBI:43474)

More details at https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/possibleTranslocations